Merge pull request #43 from mcwdsi/pr-fix-bfo-53

v2024-12-20 release

Author: hoganwr

docs/highest-id-by-release.md

@@ -1,5 +1,6 @@
 | release | highest id |
 | --- | --- |
+| v2024-12-20 | DRON_01059493 |
 | v2024-11-05 | DRON_01057635 |
 | v2024-09-04 | DRON_01053861 |
 | v2024-08-07 | DRON_01047254 |

docs/release-counts.md

@@ -16,4 +16,5 @@
 | v2024-08-05 | 2024-03 | 7474 | 3705 | 89937 | 618922 |
 | v2024-08-07 | 2024-06 | 7478 | 3713 | 90180 | 624816 |
 | v2024-09-04 | 2024-09 | 7478 | 3716 | 90441 | 631159 |
-| v2024-11-05 | 2024-11 | 7478 | 3721 | 90545 | 634824 | 
+| v2024-11-05 | 2024-11 | 7478 | 3721 | 90545 | 634824 |
+| v2024-12-20 | 2024-12 | 7484 | 3728 | 90580 | 636640 | 

src/ontology/dron-edit.owl

@@ -3,6 +3,9 @@
 ## If you need to customize your Makefile, make
 ## changes here rather than in the main Makefile
 
+RXNORM_VERSION = $(shell grep RXNORM tmp/rxnorm/RXNSAB.RRF | cut -d"|" -f7)
+ANNOTATE_ONTOLOGY_VERSION += --annotation rdfs:comment "This version of DrOn is current through RxNorm version $(RXNORM_VERSION)"
+
 ##########################
 #### Custom UO Import ####
 ##########################

src/ontology/dron.Makefile

@@ -7,9 +7,10 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)
 
 
 Ontology(<http://purl.obolibrary.org/obo/dron/imports/apollo_sv_import.owl>
-<http://purl.obolibrary.org/obo/dron/releases/2024-09-04/imports/apollo_sv_import.owl>
+<http://purl.obolibrary.org/obo/dron/releases/2024-12-20/imports/apollo_sv_import.owl>
 Annotation(<http://purl.org/dc/elements/1.1/source> <http://purl.obolibrary.org/obo/apollo_sv/releases/2024-08-15/apollo_sv.owl>)
-Annotation(owl:versionInfo "2024-09-04")
+Annotation(rdfs:comment "This version of DrOn is current through RxNorm version 20AA_241202F")
+Annotation(owl:versionInfo "2024-12-20")
 
 Declaration(Class(<http://purl.obolibrary.org/obo/APOLLO_SV_00000145>))
 Declaration(Class(<http://purl.obolibrary.org/obo/APOLLO_SV_00000335>))

src/ontology/imports/apollo_sv_import.owl

@@ -7,9 +7,10 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)
 
 
 Ontology(<http://purl.obolibrary.org/obo/dron/imports/bfo_import.owl>
-<http://purl.obolibrary.org/obo/dron/releases/2024-09-04/imports/bfo_import.owl>
+<http://purl.obolibrary.org/obo/dron/releases/2024-12-20/imports/bfo_import.owl>
 Annotation(<http://purl.org/dc/elements/1.1/source> <http://purl.obolibrary.org/obo/bfo/2019-08-26/bfo.owl>)
-Annotation(owl:versionInfo "2024-09-04")
+Annotation(rdfs:comment "This version of DrOn is current through RxNorm version 20AA_241202F")
+Annotation(owl:versionInfo "2024-12-20")
 
 Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000001>))
 Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000002>))

src/ontology/imports/bfo_import.owl

@@ -7,9 +7,10 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)
 
 
 Ontology(<http://purl.obolibrary.org/obo/dron/imports/go_import.owl>
-<http://purl.obolibrary.org/obo/dron/releases/2024-09-04/imports/go_import.owl>
-Annotation(<http://purl.org/dc/elements/1.1/source> <http://purl.obolibrary.org/obo/go/releases/2024-06-17/go.owl>)
-Annotation(owl:versionInfo "2024-09-04")
+<http://purl.obolibrary.org/obo/dron/releases/2024-12-20/imports/go_import.owl>
+Annotation(<http://purl.org/dc/elements/1.1/source> <http://purl.obolibrary.org/obo/go/releases/2024-11-03/go.owl>)
+Annotation(rdfs:comment "This version of DrOn is current through RxNorm version 20AA_241202F")
+Annotation(owl:versionInfo "2024-12-20")
 
 Declaration(Class(<http://purl.obolibrary.org/obo/GO_0003008>))
 Declaration(Class(<http://purl.obolibrary.org/obo/GO_0005488>))
@@ -20,7 +21,6 @@ Declaration(Class(<http://purl.obolibrary.org/obo/GO_0032501>))
 Declaration(Class(<http://purl.obolibrary.org/obo/GO_0050886>))
 Declaration(AnnotationProperty(<http://purl.obolibrary.org/obo/IAO_0000115>))
 Declaration(AnnotationProperty(<http://purl.obolibrary.org/obo/IAO_0000700>))
-Declaration(AnnotationProperty(<http://purl.obolibrary.org/obo/RO_0002161>))
 Declaration(AnnotationProperty(<http://purl.obolibrary.org/obo/go#gocheck_do_not_annotate>))
 Declaration(AnnotationProperty(<http://purl.obolibrary.org/obo/go#goslim_candida>))
 Declaration(AnnotationProperty(<http://purl.obolibrary.org/obo/go#goslim_chembl>))
@@ -124,14 +124,14 @@ AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasOBONamespac
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#id> <http://purl.obolibrary.org/obo/GO_0005488> "GO:0005488")
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#inSubset> <http://purl.obolibrary.org/obo/GO_0005488> <http://purl.obolibrary.org/obo/go#goslim_pir>)
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#inSubset> <http://purl.obolibrary.org/obo/GO_0005488> <http://purl.obolibrary.org/obo/go#goslim_plant>)
-AnnotationAssertion(rdfs:comment <http://purl.obolibrary.org/obo/GO_0005488> "Note that this term is in the subset of terms that should not be used for direct, manual gene product annotation. Please choose a more specific child term, or request a new one if no suitable term is available. For ligands that bind to signal transducing receptors, consider the molecular function term 'receptor binding ; GO:0005102' and its children.")
 AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/GO_0005488> "binding")
 
 # Class: <http://purl.obolibrary.org/obo/GO_0005515> (protein binding)
 
 AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "GOC:go_curators") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/GO_0005515> "Binding to a protein.")
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasAlternativeId> <http://purl.obolibrary.org/obo/GO_0005515> "GO:0001948")
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasAlternativeId> <http://purl.obolibrary.org/obo/GO_0005515> "GO:0045308")
+AnnotationAssertion(Annotation(rdfs:label "Intermediate II binds CYC1, UQCRC1, UQCRC2, UQCRH") <http://www.geneontology.org/formats/oboInOwl#hasDbXref> <http://purl.obolibrary.org/obo/GO_0005515> "Reactome:R-HSA-9866132")
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/GO_0005515> "protein amino acid binding")
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasNarrowSynonym> <http://purl.obolibrary.org/obo/GO_0005515> "glycoprotein binding")
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasOBONamespace> <http://purl.obolibrary.org/obo/GO_0005515> "molecular_function")
@@ -183,10 +183,6 @@ SubClassOf(<http://purl.obolibrary.org/obo/GO_0019899> <http://purl.obolibrary.o
 # Class: <http://purl.obolibrary.org/obo/GO_0032501> (multicellular organismal process)
 
 AnnotationAssertion(Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "GOC:curators") Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "GOC:dph") Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "GOC:isa_complete") Annotation(<http://www.geneontology.org/formats/oboInOwl#hasDbXref> "GOC:tb") <http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/GO_0032501> "Any biological process, occurring at the level of a multicellular organism, pertinent to its function.")
-AnnotationAssertion(<http://purl.obolibrary.org/obo/RO_0002161> <http://purl.obolibrary.org/obo/GO_0032501> <http://purl.obolibrary.org/obo/NCBITaxon_2>)
-AnnotationAssertion(<http://purl.obolibrary.org/obo/RO_0002161> <http://purl.obolibrary.org/obo/GO_0032501> <http://purl.obolibrary.org/obo/NCBITaxon_2157>)
-AnnotationAssertion(<http://purl.obolibrary.org/obo/RO_0002161> <http://purl.obolibrary.org/obo/GO_0032501> <http://purl.obolibrary.org/obo/NCBITaxon_4896>)
-AnnotationAssertion(<http://purl.obolibrary.org/obo/RO_0002161> <http://purl.obolibrary.org/obo/GO_0032501> <http://purl.obolibrary.org/obo/NCBITaxon_4932>)
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasAlternativeId> <http://purl.obolibrary.org/obo/GO_0032501> "GO:0044707")
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasAlternativeId> <http://purl.obolibrary.org/obo/GO_0032501> "GO:0050874")
 AnnotationAssertion(<http://www.geneontology.org/formats/oboInOwl#hasExactSynonym> <http://purl.obolibrary.org/obo/GO_0032501> "organismal physiological process")

src/ontology/imports/chebi_import.owl

@@ -7,9 +7,10 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)
 
 
 Ontology(<http://purl.obolibrary.org/obo/dron/imports/iao_import.owl>
-<http://purl.obolibrary.org/obo/dron/releases/2024-09-04/imports/iao_import.owl>
+<http://purl.obolibrary.org/obo/dron/releases/2024-12-20/imports/iao_import.owl>
 Annotation(<http://purl.org/dc/elements/1.1/source> <http://purl.obolibrary.org/obo/iao/2022-11-07/iao.owl>)
-Annotation(owl:versionInfo "2024-09-04")
+Annotation(rdfs:comment "This version of DrOn is current through RxNorm version 20AA_241202F")
+Annotation(owl:versionInfo "2024-12-20")
 
 Declaration(Class(<http://purl.obolibrary.org/obo/IAO_0000003>))
 Declaration(Class(<http://purl.obolibrary.org/obo/IAO_0000009>))

src/ontology/imports/go_import.owl

@@ -7,9 +7,10 @@ Prefix(rdfs:=<http://www.w3.org/2000/01/rdf-schema#>)
 
 
 Ontology(<http://purl.obolibrary.org/obo/dron/imports/obi_import.owl>
-<http://purl.obolibrary.org/obo/dron/releases/2024-09-04/imports/obi_import.owl>
-Annotation(<http://purl.org/dc/elements/1.1/source> <http://purl.obolibrary.org/obo/obi/2024-06-10/obi.owl>)
-Annotation(owl:versionInfo "2024-09-04")
+<http://purl.obolibrary.org/obo/dron/releases/2024-12-20/imports/obi_import.owl>
+Annotation(<http://purl.org/dc/elements/1.1/source> <http://purl.obolibrary.org/obo/obi/2024-12-05/obi.owl>)
+Annotation(rdfs:comment "This version of DrOn is current through RxNorm version 20AA_241202F")
+Annotation(owl:versionInfo "2024-12-20")
 
 Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000015>))
 Declaration(Class(<http://purl.obolibrary.org/obo/BFO_0000040>))
@@ -51,7 +52,7 @@ Declaration(Datatype(xsd:date))
 
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000111> <http://purl.obolibrary.org/obo/OBI_0001938> "has value specification")
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000114> <http://purl.obolibrary.org/obo/OBI_0001938> <http://purl.obolibrary.org/obo/IAO_0000120>)
-AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/OBI_0001938> "A relation between an information content entity and a value specification that specifies its value.")
+AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/OBI_0001938> "A relation between an information content entity and a value specification that specifies its value."@en)
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000117> <http://purl.obolibrary.org/obo/OBI_0001938> "PERSON: James A. Overton")
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000119> <http://purl.obolibrary.org/obo/OBI_0001938> "OBI")
 AnnotationAssertion(rdfs:label <http://purl.obolibrary.org/obo/OBI_0001938> "has value specification")
@@ -66,7 +67,7 @@ SubObjectPropertyOf(<http://purl.obolibrary.org/obo/OBI_0001938> <http://purl.ob
 
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000111> <http://purl.obolibrary.org/obo/OBI_0001937> "has specified numeric value")
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000114> <http://purl.obolibrary.org/obo/OBI_0001937> <http://purl.obolibrary.org/obo/IAO_0000120>)
-AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/OBI_0001937> "A relation between a value specification and a number that quantifies it.")
+AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000115> <http://purl.obolibrary.org/obo/OBI_0001937> "A relation between a value specification and a number that quantifies it."@en)
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000116> <http://purl.obolibrary.org/obo/OBI_0001937> "A range of 'real' might be better than 'float'. For now we follow 'has measurement value' until we can consider technical issues with SPARQL queries and reasoning.")
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000117> <http://purl.obolibrary.org/obo/OBI_0001937> "PERSON: James A. Overton")
 AnnotationAssertion(<http://purl.obolibrary.org/obo/IAO_0000119> <http://purl.obolibrary.org/obo/OBI_0001937> "OBI")